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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $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' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ), 'gf_id' => 'HOM05D001126', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001126' ), 'data_identifier' => 'HOM05D001126', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001126', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '548', 'num_species' => '80' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p50370' => 'bna', 'A08p12970' => 'bna', 'A10p32930' => 'bna', 'Aa31LG9G5460' => 'aar', 'Actinidia02121' => 'ach', 'Actinidia02122' => 'ach', 'Actinidia02123' => 'ach', 'Actinidia05201' => 'ach', 'Actinidia27462' => 'ach', 'Actinidia35914' => 'ach', 'Actinidia35915' => 'ach', 'AL7G37450' => 'aly', 'AL8G10390' => 'aly', 'Aqoxy1G01848' => 'aox', 'Aqoxy2G00820' => 'aox', 'Aqoxy2G01978' => 'aox', 'Aqoxy2G03575' => 'aox', 'Aqoxy2G03581' => 'aox', 'Aqoxy2G04023' => 'aox', 'Aqoxy2G04025' => 'aox', 'Aqoxy3G00073' => 'aox', 'Aqoxy3G02263' => 'aox', 'Aqoxy3G04322' => 'aox', 'Aqoxy4G00211' => 'aox', 'Aqoxy4G00789' => 'aox', 'Aqoxy4G01045' => 'aox', 'Aqoxy4G01755' => 'aox', 'Aqoxy5G01335' => 'aox', 'Aqoxy5G01891' => 'aox', 'Aqoxy5G03460' => 'aox', 'Aqoxy6G01510' => 'aox', 'Aqoxy6G02181' => 'aox', 'Aqoxy6G02619' => 'aox', 'arahy.Tifrunner.gnm1.ann1.7C4I10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7SA5TE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EGMR3D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KWV6UN' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L34K9S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RQZI72' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V75HI3' => 'arhy', 'AT4G17250' => 'ath', 'AT5G47580' => 'ath', 'Atru.chr9.1328' => 'acertr', 'BcaB04g18408' => 'bca', 'BcaC06g33547' => 'bca', 'BcaC07g38042' => 'bca', 'BcaC07g38045' => 'bca', 'BcaNung03273' => 'bca', 'BcaNung03470' => 'bca', 'BolC7t45375H' => 'bol', 'BolC8t48446H' => 'bol', 'BolC9t60122H' => 'bol', 'BraA03t14126Z' => 'bra', 'BraA08t33280Z' => 'bra', 'BraA10t45330Z' => 'bra', 'C07p48680' => 'bna', 'C09p73890' => 'bna', 'CAN.G1218.15' => 'can', 'CAN.G1218.16' => 'can', 'CAN.G1218.18' => 'can', 'CANSAT21G0832' => 'cansat', 'CARHR173770' => 'chi', 'CARHR223880' => 'chi', 'Carub.0006s0159' => 'cru', 'Carub.0007s2415' => 'cru', 'Ca_21957_v3' => 'car', 'Cc08_g12620' => 'ccan', 'Cc08_g12650' => 'ccan', 'CDE01G0817' => 'cde', 'CDE02G1228' => 'cde', 'CDE04G0560' => 'cde', 'CDE04G0880' => 'cde', 'CDE04G1014' => 'cde', 'CDE04G1058' => 'cde', 'CDE04G3421' => 'cde', 'CDE09G0098' => 'cde', 'CDE11G0395' => 'cde', 'CDE12G0182' => 'cde', 'CDE12G0197' => 'cde', 'CDE12G0257' => 'cde', 'CDE12G0313' => 'cde', 'CDE12G0430' => 'cde', 'CDE12G0754' => 'cde', 'CDE12G0874' => 'cde', 'Cfa007765' => 'cfa', 'Ciclev10018984m.g' => 'ccl', 'CiPaw.11G152900' => 'cil', 'CiPaw.11G153000' => 'cil', 'CiPaw.12G108900' => 'cil', 'ClCG04G005920' => 'cla', 'Cpa.g.sc29.141' => 'cpa', 'CsaV3_4G029220' => 'csa', 'CSS0001392' => 'camsi', 'CSS0006314' => 'camsi', 'CSS0019716' => 'camsi', 'CSS0025159' => 'camsi', 'CSS0027414' => 'camsi', 'CSS0040514' => 'camsi', 'CSS0041374' => 'camsi', 'CSS0047077' => 'camsi', 'DCAR_010087' => 'dca', 'DCAR_027782' => 'dca', 'Dinv03970' => 'din', 'Dinv06802' => 'din', 'Dinv06803' => 'din', 'Dinv06805' => 'din', 'Dinv06808' => 'din', 'Dinv10278' => 'din', 'Dinv21539' => 'din', 'Dinv21540' => 'din', 'Dinv21622' => 'din', 'Dinv21623' => 'din', 'Dinv21624' => 'din', 'Dinv21625' => 'din', 'Dinv28074' => 'din', 'Dinv39129' => 'din', 'Duzib205G0781' => 'dzi', 'ECA233G0141' => 'eca', 'ECA233G0214' => 'eca', 'ECA233G0409' => 'eca', 'ECA233G0441' => 'eca', 'ECA233G1743' => 'eca', 'ECA233G1870' => 'eca', 'ECA233G2524' => 'eca', 'ECA233G2905' => 'eca', 'ECA233G4058' => 'eca', 'ECA233G4136' => 'eca', 'ECA233G4491' => 'eca', 'ECA233G4998' => 'eca', 'ECA234G4035' => 'eca', 'ECA238G0388' => 'eca', 'ECA238G0606' => 'eca', 'ECA238G1791' => 'eca', 'ECA238G3205' => 'eca', 'ECA238G4474' => 'eca', 'ECA246G0588' => 'eca', 'ECA246G0846' => 'eca', 'ECA246G1357' => 'eca', 'ECA246G4059' => 'eca', 'ECA247G0742' => 'eca', 'ECA248G0316' => 'eca', 'ECA248G0462' => 'eca', 'ECA248G0518' => 'eca', 'ECA248G0976' => 'eca', 'ECA248G0991' => 'eca', 'ECA248G1334' => 'eca', 'ECA248G1441' => 'eca', 'ECA248G1571' => 'eca', 'ECA248G1840' => 'eca', 'ECA248G2315' => 'eca', 'ECA248G2329' => 'eca', 'ECA248G2886' => 'eca', 'ECA248G2994' => 'eca', 'ECA248G3485' => 'eca', 'ECA248G3845' => 'eca', 'ECA248G3872' => 'eca', 'ECA248G3895' => 'eca', 'ECA267G0002' => 'eca', 'Eucgr.D02048' => 'egr', 'Eucgr.D02052' => 'egr', 'Eucgr.D02054' => 'egr', 'Eucgr.D02056' => 'egr', 'Eucgr.D02063' => 'egr', 'Eucgr.D02066' => 'egr', 'Eucgr.L01519' => 'egr', 'Eucgr.L01523' => 'egr', 'Eucgr.L02879' => 'egr', 'FAN11G0525' => 'fan', 'FAN16G0079' => 'fan', 'FAN19G0018' => 'fan', 'FAN21G2368' => 'fan', 'FAN21G3737' => 'fan', 'FAN23G1624' => 'fan', 'FAN25G0791' => 'fan', 'FAN25G1129' => 'fan', 'FAN26G3347' => 'fan', 'FAN28G0762' => 'fan', 'FvH4_1g17520' => 'fve', 'FvH4_3g26860' => 'fve', 'FvH4_3g26870' => 'fve', 'FvH4_3g26871' => 'fve', 'FvH4_3g26880' => 'fve', 'Glyma.05G058400' => 'gma', 'Glyma.17G140800' => 'gma', 'Gohir.A12G217800' => 'ghi', 'Gohir.D12G220300' => 'ghi', 'Gorai.008G236000' => 'gra', 'GSVIVG01001310001' => 'vvi', 'HanXRQChr03g0062411' => 'han', 'HanXRQChr03g0062421' => 'han', 'HanXRQChr03g0081781' => 'han', 'HanXRQChr03g0083611' => 'han', 'HanXRQChr04g0107271' => 'han', 'HanXRQChr04g0108721' => 'han', 'HanXRQChr04g0108731' => 'han', 'HanXRQChr04g0108741' => 'han', 'HanXRQChr05g0142401' => 'han', 'HanXRQChr05g0142411' => 'han', 'HanXRQChr05g0142461' => 'han', 'HanXRQChr06g0171781' => 'han', 'HanXRQChr06g0171801' => 'han', 'HanXRQChr06g0171821' => 'han', 'HanXRQChr06g0171841' => 'han', 'HanXRQChr06g0171851' => 'han', 'HanXRQChr06g0171861' => 'han', 'HanXRQChr06g0171891' => 'han', 'HanXRQChr08g0222761' => 'han', 'HanXRQChr08g0222771' => 'han', 'HanXRQChr08g0222781' => 'han', 'HanXRQChr08g0222951' => 'han', 'HanXRQChr08g0222961' => 'han', 'HanXRQChr08g0222971' => 'han', 'HanXRQChr09g0254571' => 'han', 'HanXRQChr09g0263641' => 'han', 'HanXRQChr10g0305841' => 'han', 'HanXRQChr10g0305861' => 'han', 'HanXRQChr10g0307461' => 'han', 'HanXRQChr10g0307471' => 'han', 'HanXRQChr10g0315191' => 'han', 'HanXRQChr10g0316541' => 'han', 'HanXRQChr10g0316561' => 'han', 'HanXRQChr10g0316571' => 'han', 'HanXRQChr10g0316581' => 'han', 'HanXRQChr10g0316591' => 'han', 'HanXRQChr10g0316601' => 'han', 'HanXRQChr10g0316611' => 'han', 'HanXRQChr10g0317351' => 'han', 'HanXRQChr10g0317471' => 'han', 'HanXRQChr10g0317541' => 'han', 'HanXRQChr10g0317601' => 'han', 'HanXRQChr10g0317621' => 'han', 'HanXRQChr10g0317631' => 'han', 'HanXRQChr10g0317651' => 'han', 'HanXRQChr10g0317661' => 'han', 'HanXRQChr10g0317671' => 'han', 'HanXRQChr10g0317681' => 'han', 'HanXRQChr10g0317711' => 'han', 'HanXRQChr10g0317721' => 'han', 'HanXRQChr10g0317731' => 'han', 'HanXRQChr11g0321851' => 'han', 'HanXRQChr11g0332861' => 'han', 'HanXRQChr11g0351911' => 'han', 'HanXRQChr11g0351921' => 'han', 'HanXRQChr11g0351931' => 'han', 'HanXRQChr11g0351941' => 'han', 'HanXRQChr11g0351951' => 'han', 'HanXRQChr11g0351961' => 'han', 'HanXRQChr11g0352111' => 'han', 'HanXRQChr11g0352141' => 'han', 'HanXRQChr11g0352151' => 'han', 'HanXRQChr11g0352171' => 'han', 'HanXRQChr11g0352211' => 'han', 'HanXRQChr12g0356091' => 'han', 'HanXRQChr12g0356111' => 'han', 'HanXRQChr12g0356121' => 'han', 'HanXRQChr12g0356141' => 'han', 'HanXRQChr12g0356151' => 'han', 'HanXRQChr12g0356161' => 'han', 'HanXRQChr13g0396021' => 'han', 'HanXRQChr13g0420461' => 'han', 'HanXRQChr13g0420491' => 'han', 'HanXRQChr13g0424721' => 'han', 'HanXRQChr15g0467561' => 'han', 'HanXRQChr15g0467571' => 'han', 'HanXRQChr15g0467581' => 'han', 'HanXRQChr15g0467591' => 'han', 'HanXRQChr15g0467601' => 'han', 'HanXRQChr15g0467621' => 'han', 'HanXRQChr15g0467631' => 'han', 'HanXRQChr15g0467681' => 'han', 'HanXRQChr16g0520641' => 'han', 'HanXRQChr16g0520651' => 'han', 'HanXRQChr17g0540721' => 'han', 'HanXRQChr17g0540731' => 'han', 'HanXRQChr17g0542981' => 'han', 'HanXRQChr17g0542991' => 'han', 'HanXRQChr17g0543031' => 'han', 'HanXRQChr17g0543041' => 'han', 'HanXRQChr17g0545681' => 'han', 'HanXRQChr17g0561641' => 'han', 'HanXRQChr17g0561651' => 'han', 'Haze_14308' => 'cav', 'Haze_21287' => 'cav', 'Hma1.2p1_0916F.1_g236450' => 'hma', 'Hma1.2p1_0916F.1_g236460' => 'hma', 'Hma1.2p1_0916F.1_g236470' => 'hma', 'Hma1.2p1_0916F.1_g236480' => 'hma', 'Hma1.2p1_0916F.1_g236495' => 'hma', 'Hma1.2p1_1395F.1_g280460' => 'hma', 'Hma1.2p1_1395F.1_g280470' => 'hma', 'Hma1.2p1_1395F.1_g280480' => 'hma', 'Hma1.2p1_1395F.1_g280490' => 'hma', 'Hma1.2p1_1395F.1_g280520' => 'hma', 'Hma1.2p1_1395F.1_g280540' => 'hma', 'Hma1.2p1_1430F.1_g282950' => 'hma', 'Hma1.2p1_1635F.1_g294780' => 'hma', 'Hma1.2p1_1635F.1_g294800' => 'hma', 'Hma1.2p1_1635F.1_g294810' => 'hma', 'Hma1.2p1_1814F.1_g303900' => 'hma', 'Hma1.2p1_1814F.1_g303910' => 'hma', 'Hma1.2p1_1814F.1_g303920' => 'hma', 'Hma1.2p1_1814F.1_g303925' => 'hma', 'Hma1.2p1_1814F.1_g303930' => 'hma', 'Hma1.2p1_1934F.1_g308130' => 'hma', 'Hma1.2p1_1990F.1_g310170' => 'hma', 'Hma1.2p1_1990F.1_g310180' => 'hma', 'Hma1.2p1_2031F.1_g311810' => 'hma', 'Hma1.2p1_2238F.1_g317810' => 'hma', 'Hma1.2p1_2370F.1_g320790' => 'hma', 'Hma1.2p1_3173F.1_g333590' => 'hma', 'Hma1.2p1_3173F.1_g333600' => 'hma', 'Hma1.2p1_3207F.1_g333970' => 'hma', 'Hma1.2p1_3207F.1_g333980' => 'hma', 'Hma1.2p1_3357F.1_g335540' => 'hma', 'Lalb_Chr05g0225761' => 'lal', 'Lj1P718T26' => 'lonja', 'Lj2C216T2' => 'lonja', 'Lj2C216T3' => 'lonja', 'Lj4g0001641' => 'lja', 'Lj5P796T21' => 'lonja', 'Lj8C260G2' => 'lonja', 'Lj8C260T5' => 'lonja', 'Lj8C260T6' => 'lonja', 'Lj8C261G4' => 'lonja', 'Lj8C261T1' => 'lonja', 'Lj8C261T15' => 'lonja', 'Lj8C261T2' => 'lonja', 'Lj8C261T3' => 'lonja', 'Lj8C261T5' => 'lonja', 'Lj8P260T34' => 'lonja', 'Lsat_1_v5_gn_1_42220' => 'lsa', 'Lsat_1_v5_gn_1_43181' => 'lsa', 'Lsat_1_v5_gn_1_43221' => 'lsa', 'Lsat_1_v5_gn_1_43281' => 'lsa', 'Lsat_1_v5_gn_1_43301' => 'lsa', 'Lsat_1_v5_gn_1_46180' => 'lsa', 'Lsat_1_v5_gn_1_46240' => 'lsa', 'Lsat_1_v5_gn_1_46280' => 'lsa', 'Lsat_1_v5_gn_1_46320' => 'lsa', 'Lsat_1_v5_gn_1_46340' => 'lsa', 'Lsat_1_v5_gn_1_46400' => 'lsa', 'Lsat_1_v5_gn_1_46480' => 'lsa', 'Lsat_1_v5_gn_1_46500' => 'lsa', 'Lsat_1_v5_gn_1_46520' => 'lsa', 'Lsat_1_v5_gn_1_46560' => 'lsa', 'Lsat_1_v5_gn_1_58021' => 'lsa', 'Lsat_1_v5_gn_1_68400' => 'lsa', 'Lsat_1_v5_gn_1_87001' => 'lsa', 'Lsat_1_v5_gn_1_87081' => 'lsa', 'Lsat_1_v5_gn_3_32921' => 'lsa', 'Lsat_1_v5_gn_3_32961' => 'lsa', 'Lsat_1_v5_gn_3_79320' => 'lsa', 'Lsat_1_v5_gn_4_115200' => 'lsa', 'Lsat_1_v5_gn_4_115621' => 'lsa', 'Lsat_1_v5_gn_4_115660' => 'lsa', 'Lsat_1_v5_gn_5_87360' => 'lsa', 'Lsat_1_v5_gn_6_3201' => 'lsa', 'Lsat_1_v5_gn_6_3341' => 'lsa', 'Lsat_1_v5_gn_6_33960' => 'lsa', 'Lsat_1_v5_gn_6_34481' => 'lsa', 'Lsat_1_v5_gn_6_34521' => 'lsa', 'Lsat_1_v5_gn_6_34541' => 'lsa', 'Lsat_1_v5_gn_6_39401' => 'lsa', 'Lsat_1_v5_gn_6_39441' => 'lsa', 'Lsat_1_v5_gn_6_39681' => 'lsa', 'Lsat_1_v5_gn_6_39861' => 'lsa', 'Lsat_1_v5_gn_6_39901' => 'lsa', 'Lsat_1_v5_gn_6_39921' => 'lsa', 'Lsat_1_v5_gn_6_39981' => 'lsa', 'Lsat_1_v5_gn_6_40001' => 'lsa', 'Lsat_1_v5_gn_6_40021' => 'lsa', 'Lsat_1_v5_gn_6_40101' => 'lsa', 'Lsat_1_v5_gn_6_40121' => 'lsa', 'Lsat_1_v5_gn_6_40141' => 'lsa', 'Lsat_1_v5_gn_6_40261' => 'lsa', 'Lsat_1_v5_gn_6_40281' => 'lsa', 'Lsat_1_v5_gn_6_40621' => 'lsa', 'Lsat_1_v5_gn_6_40720' => 'lsa', 'Lsat_1_v5_gn_6_40780' => 'lsa', 'Lsat_1_v5_gn_6_45181' => 'lsa', 'Lsat_1_v5_gn_7_67040' => 'lsa', 'Lsat_1_v5_gn_8_153161' => 'lsa', 'Lsat_1_v5_gn_9_16700' => 'lsa', 'Manes.01G079500' => 'mes', 'MBI04_g36032_MAGBIO' => 'mbi', 'MBI04_g36033_MAGBIO' => 'mbi', 'MD06G1060600' => 'mdo', 'MD06G1060700' => 'mdo', 'MD06G1060900' => 'mdo', 'Medtr4g101050' => 'mtr', 'Medtr4g101070' => 'mtr', 'MELO3C019137.2' => 'cme', 'Migut.A00965' => 'egut', 'Migut.D01648' => 'egut', 'Migut.I00444' => 'egut', 'Migut.O00099' => 'egut', 'Migut.O00100' => 'egut', 'Migut.O00101' => 'egut', 'Migut.O00102' => 'egut', 'Migut.O00103' => 'egut', 'Migut.O00106' => 'egut', 'Migut.O00107' => 'egut', 'Migut.O00108' => 'egut', 'Migut.O00109' => 'egut', 'Migut.O00110' => 'egut', 'Migut.O00111' => 'egut', 'Migut.O00112' => 'egut', 'Migut.O00113' => 'egut', 'MSTRG.11465' => 'ama', 'MSTRG.12088' => 'ama', 'Nitab4.5_0000312g0150' => 'nta', 'Nitab4.5_0008481g0030' => 'nta', 'Nitab4.5_0012281g0020' => 'nta', 'Oeu006693.1' => 'oeu', 'Oeu016406.1' => 'oeu', 'Oeu016407.1' => 'oeu', 'Oeu016409.1' => 'oeu', 'Oeu016412.1' => 'oeu', 'Oeu016413.1' => 'oeu', 'Oeu016890.1' => 'oeu', 'Oeu016891.1' => 'oeu', 'Oeu016892.1' => 'oeu', 'Oeu016895.1' => 'oeu', 'Oeu016897.1' => 'oeu', 'Oeu019589.1' => 'oeu', 'Oeu019594.1' => 'oeu', 'Oeu020916.1' => 'oeu', 'Oeu020917.1' => 'oeu', 'Oeu026175.1' => 'oeu', 'Oeu030722.1' => 'oeu', 'Oeu030724.1' => 'oeu', 'Oeu032793.1' => 'oeu', 'Oeu032799.1' => 'oeu', 'Oeu032800.1' => 'oeu', 'Oeu035979.1' => 'oeu', 'Oeu035989.1' => 'oeu', 'Oeu036002.1' => 'oeu', 'Oeu036003.1' => 'oeu', 'Oeu036004.1' => 'oeu', 'Oeu036005.1' => 'oeu', 'Oeu039331.1' => 'oeu', 'Oeu040838.1' => 'oeu', 'Oeu040839.2' => 'oeu', 'Oeu040843.1' => 'oeu', 'Oeu045104.1' => 'oeu', 'Oeu046405.1' => 'oeu', 'Oeu048634.1' => 'oeu', 'Oeu048636.1' => 'oeu', 'Oeu048637.1' => 'oeu', 'Oeu050140.1' => 'oeu', 'Oeu050141.1' => 'oeu', 'Oeu050142.2' => 'oeu', 'Oeu050143.2' => 'oeu', 'Oeu059466.1' => 'oeu', 'Oeu059468.1' => 'oeu', 'Oeu062974.1' => 'oeu', 'Peaxi162Scf00002g01619' => 'pax', 'Peaxi162Scf00002g01621' => 'pax', 'PGR031G2523' => 'pgr', 'PGSC0003DMG400004804' => 'stu', 'PGSC0003DMG400004805' => 'stu', 'PGSC0003DMG400013805' => 'stu', 'PGSC0003DMG400036305' => 'stu', 'PGSC0003DMG401004803' => 'stu', 'PGSC0003DMG402004803' => 'stu', 'Phvul.003G219666' => 'pvu', 'Phvul.003G219732' => 'pvu', 'Potri.001G123100' => 'ptr', 'Potri.003G110700' => 'ptr', 'Prupe.5G071600' => 'ppe', 'Prupe.5G071700' => 'ppe', 'Prupe.5G071900' => 'ppe', 'Psat4g070280' => 'psa', 'PSO837G0036' => 'pso', 'QL12p012568' => 'qlo', 'RcHm_v2.0_Chr7g0202951' => 'rch', 'RcHm_v2.0_Chr7g0202961' => 'rch', 'RcHm_v2.0_Chr7g0202971' => 'rch', 'Rhsim04G0033400' => 'rsi', 'Rhsim04G0106900' => 'rsi', 'Rhsim04G0107000' => 'rsi', 'Rhsim04G0107100' => 'rsi', 'Rhsim04G0107200' => 'rsi', 'Rhsim04G0107300' => 'rsi', 'Rhsim04G0107500' => 'rsi', 'Rhsim04G0107700' => 'rsi', 'Rhsim04G0107800' => 'rsi', 'Rhsim05G0003300' => 'rsi', 'Rhsim05G0003400' => 'rsi', 'Rhsim07G0107700' => 'rsi', 'Rhsim07G0107800' => 'rsi', 'Rhsim07G0176400' => 'rsi', 'Rhsim11G0051500' => 'rsi', 'RhsimUnG0169500' => 'rsi', 'Sabra01G0094700' => 'sbr', 'Sabra01G0094800' => 'sbr', 'Sabra03G0076800' => 'sbr', 'SalBow1G1493' => 'sbo', 'SalBow1G8642' => 'sbo', 'SalBow5G0265' => 'sbo', 'SalBow5G0401' => 'sbo', 'SalBow5G0468' => 'sbo', 'SalBow5G1124' => 'sbo', 'SalBow5G1819' => 'sbo', 'SalBow5G1990' => 'sbo', 'SalBow5G2238' => 'sbo', 'SalBow5G2328' => 'sbo', 'SalBow5G2489' => 'sbo', 'SalBow5G2959' => 'sbo', 'SalBow5G3027' => 'sbo', 'SalBow5G4753' => 'sbo', 'SalBow5G5433' => 'sbo', 'SalBow5G5629' => 'sbo', 'SalBow6G4164' => 'sbo', 'SalBow8G0579' => 'sbo', 'Sed0007528' => 'sed', 'SEGI_09134' => 'sgi', 'SEGI_14245' => 'sgi', 'SEGI_40596' => 'sgi', 'SGA_v2.0_scaffold120G32874' => 'sas', 'SGA_v2.0_scaffold25G10833' => 'sas', 'SGA_v2.0_scaffold48G17813' => 'sas', 'SGA_v2.0_scaffold90G27897' => 'sas', 'Solyc06g060650.1' => 'sly', 'Solyc06g060660.1' => 'sly', 'Solyc08g078760.1' => 'sly', 'Solyc08g078770.1' => 'sly', 'Solyc08g078780.2' => 'sly', 'Sopen06g020780' => 'spe', 'Sopen08g027230' => 'spe', 'Sopen08g027240' => 'spe', 'Sopen08g027250' => 'spe', 'Sp7g16880' => 'spa', 'Sp7g16920' => 'spa', 'TAR629G0685' => 'tar', 'THA.LOC104798374' => 'tha', 'Thecc.03G253400' => 'tca', 'Thhalv10024505m.g' => 'esa', 'Thhalv10026993m.g' => 'esa', 'TPR.G37645' => 'tpr', 'TPR.G37682' => 'tpr', 'TWI81G0441' => 'twi', 'unitig_22.g6245' => 'ugi', 'vmacro02651' => 'vma', 'vmacro09047' => 'vma', 'vmacro19975' => 'vma', 'vmacro23133' => 'vma', 'VMungo0251G2404' => 'vmu' ) $gf_id = 'HOM05D001126' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001126' ) $data_identifier = 'HOM05D001126' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 5, 'aar' => (int) 1, 'ach' => (int) 7, 'aly' => (int) 2, 'aox' => (int) 20, 'arhy' => (int) 7, 'ath' => (int) 2, 'acertr' => (int) 1, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 2, 'cru' => (int) 2, 'car' => (int) 1, 'ccan' => (int) 2, 'cde' => (int) 16, 'cfa' => (int) 1, 'ccl' => (int) 1, 'cil' => (int) 3, 'cla' => (int) 1, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 8, 'dca' => (int) 2, 'din' => (int) 14, 'dzi' => (int) 1, 'eca' => (int) 41, 'egr' => (int) 9, 'fan' => (int) 10, 'fve' => (int) 5, 'gma' => (int) 2, 'ghi' => (int) 2, 'gra' => (int) 1, 'vvi' => (int) 1, 'han' => (int) 93, 'cav' => (int) 2, 'hma' => (int) 31, 'lal' => (int) 1, 'lonja' => (int) 14, 'lja' => (int) 1, 'lsa' => (int) 53, 'mes' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 3, 'mtr' => (int) 2, 'cme' => (int) 1, 'egut' => (int) 16, 'ama' => (int) 2, 'nta' => (int) 3, 'oeu' => (int) 43, 'pax' => (int) 2, 'pgr' => (int) 1, 'stu' => (int) 6, 'pvu' => (int) 2, 'ptr' => (int) 2, 'ppe' => (int) 3, 'psa' => (int) 1, 'pso' => (int) 1, 'qlo' => (int) 1, 'rch' => (int) 3, 'rsi' => (int) 16, 'sbr' => (int) 3, 'sbo' => (int) 18, 'sed' => (int) 1, 'sgi' => (int) 3, 'sas' => (int) 4, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 2, 'tar' => (int) 1, 'tha' => (int) 1, 'tca' => (int) 1, 'esa' => (int) 2, 'tpr' => (int) 2, 'twi' => (int) 1, 'ugi' => (int) 1, 'vma' => (int) 4, 'vmu' => (int) 1 ) $gf_gene_species = 'vmu' $gf_gene_id = 'VMungo0251G2404' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1